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INCATools / ubergraph

Integrated OBO ontology store
BSD 3-Clause "New" or "Revised" License
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change IC score to count all incoming relations #94

Closed balhoff closed 2 years ago

balhoff commented 2 years ago

Right now the precomputed information content score is based on incoming subClassOf and part_of relations: https://github.com/INCATools/ubergraph/blob/b6c07bd169aaa22fdaf376fbe2ca40cbb9ba44fb/ic.dl#L18-L19

We are thinking of changing this to reflect any relation in the redundant graph. This way any term that is frequently referenced in axioms would get a lower IC score.

@dosumis is your group using this number for anything? Trying to see if anyone outside of Data Translator (@cbizon) would notice this.

balhoff commented 2 years ago

For example, right now hydron has reference count 5. But in the updated counting it would be 136, giving a much lower IC.

dosumis commented 2 years ago

We've been using it experimentally in CAP, but I don't think it's turned out to be that useful for what we were trying to achieve. @ubyndr - do you have any details to add?

ubyndr commented 2 years ago

We tried to utilize this to propose a grouping for their anatomical structures, but they weren't so eager to use this analysis.